Evaluating Reproducibility and Similarity of Mass and Intensity Data in Complex Spectra-Applications to Tubulin

Journal of the American Society for Mass Spectrometry

Volumn 19, Issue 3, 2008, Pages 367-374

  Olson, Matthew T ^a   Blank, Paul S ^a   Sackett, Dan L ^a   Yergey, Alfred L ^a  

^a EUNICE KENNEDY SHRIVER NATIONAL INSTITUTE OF CHILD HEALTH AND HUMAN DEVELOPMENT   (United States)

Author keywords

[No Author keywords available]

Indexed keywords

BRAIN; CORRELATION METHODS; DATA REDUCTION; PEPTIDES; SPECTRUM ANALYSIS;

CONSENSUS SPECTRUM; SPECTRAL CORRELATION; SPECTRAL DOT PRODUCTS; SPECTRAL SIMILARITY;

DATA PROCESSING;

CYANOGEN BROMIDE; TUBULIN;

ANALYTIC METHOD; ARTICLE; COMPARATIVE STUDY; COW; EVALUATION; MASS SPECTROMETRY; NONHUMAN; PROTEIN EXPRESSION; PROTEIN PROCESSING; QUANTUM YIELD; RAT; REPRODUCIBILITY;

ANIMALS; AUTOMATIC DATA PROCESSING; BRAIN CHEMISTRY; CATTLE; CONFIDENCE INTERVALS; CYANOGEN BROMIDE; DATA INTERPRETATION, STATISTICAL; MALE; PEPTIDES; PROTEIN ISOFORMS; PROTEIN PROCESSING, POST-TRANSLATIONAL; RATS; REPRODUCIBILITY OF RESULTS; SPECTROMETRY, MASS, MATRIX-ASSISTED LASER DESORPTION-IONIZATION; TESTIS; TUBULIN;

RATTUS;

EID: 40249092924     PISSN: 10440305     EISSN: None     Source Type: Journal    
DOI: 10.1016/j.jasms.2007.11.012     Document Type: Article

References (19)

1. Stein S. Estimating Probabilities of Correct Identification from Results of Mass Spectral Library Searches. J. Am. Soc. Mass Spectrom. 5 (1994) 316-323
2. Wan K.X., Vidavsky I., and Gross M.L. Comparing Similar Spectra: From Similarity Index to Spectral Contrast Angle. J. Am. Soc. Mass Spectrom. 13 (2001) 85-88
3. Frewen B., Merrihew G.E., Wu C.C., Noble W.S., and MacCoss M.J. Analysis of Peptide MS/MS Spectra from Large-Scale Proteomics Experiments Using Spectrum Libraries. Anal. Chem. 78 (2006) 5678-5684
4. Lam H., Deutsch E.W., Eddes J.S., Eng J., King N., Stein S., and Aebersold R. Development and Validation of a Spectral Library Searching Method for Peptide Identification from MS/MS. Proteomics 7 (2007) 655-667
5. Stanchi F., Corso V., Scannapieco P., Ievolella C., Negrisolo E., Tiso N., Lanfranchi G., and Valle G. TUBA8: A New Tissue Specific Isoform of α-Tubulin that is Highly Conserved in Human and Mouse. Biochem. Biophys. Res. Commun. 270 (2000) 1111-1118
6. Tuszynski J., Carpenter E., Huzil J., Malinski W., Luchko T., and Ludena R. The Evolution of the Structure of Tubulin and Its Potential Consequences for the Role and Function of Microtubules in Cells and Embryos. Int. J. Dev. Biol. 50 (2006) 341-358
7. Kuster B., Schirle M., Mallick P., and Aebersold R. Scoring Proteomes with Proteotypic Peptide Probes. Nat. Rev. Mol. Cell. Biol. 6 (2005) 577-583
8. Monigiatti F., and Berndt P. Algorithm for Accurate Similarity Measurements of Peptide Mass Fingerprints and Its Application. J. Am. Soc. Mass Spectrom. 16 (2005) 13-21
9. Sackett D., Knipling L., and Wolff J. Isolation of Microtubule Protein from Mammalian Brain Frozen for Extended Periods of Time. Protein Expr. Purif. 2 (1991) 390-393
10. Sackett D. Rapid Purification of Tubulin from Tissue and Tissue Culture Cells Using Solid-Phase Ion Exchange. Anal. Biochem. 228 (1995) 343-348
11. Wolff J., Sackett D., and Knipling L. Cation Selective Promotion of Tubulin Polymerization by Alkali Metal Chlorides. Protein Sci 5 10 (1996) 2020-2028
12. Woods A., Huang A., Cotter R.J., Pasternack G., Pardoll D., and Jaffee E. Simplified High-Sensitivity Sequencing of a Major Histocompatibility Complex Class I-Associated Immunoreactive Peptide Using Matrix Assisted Laser Desorption Ionization Mass Spectrometry. Anal. Biochem. 226 1 (1995) 15-25
13. Zar J. Biostatistical Analysis. 2nd ed. (1974), Prentice-Hall, Englewood Cliffs, NJ 311-313
14. Rao S., Åberg F., Nieves E., Horwitz S.B., and Orr G.A. Identification by Mass Spectrometry of a New α-Tubulin Isotype Expressed in Human Breast and Lung Carcinoma Cell Lines. Biochemistry 40 (2001) 2096-2103
15. Verdier-Pinard P., Wan F., Burd B., Angeletti R.H., Horwitz S.B., and Orr G.A. Direct Analysis of Tubulin Expression in Cancer Cell Lines by Electrospray Ionization Mass Spectrometry. Biochemistry 42 41 (2003) 12019-12027
16. Verdier-Pinard P., Shahabi S., Wang F., Burd B., Xiao H., Goldberg G., Orr G.A., and Horwitz S.B. Detection of Human β-Tubulin Expression in Epithelial Cancer Cell Lines by Tubulin Proteomics. Biochemistry 44 48 (2005) 15858-15870
17. Rudiger M., and Weber K. Characterization of the post-translational modifications in tubulin from the marginal band of avian erythrocytes. Eur. J. Biochem. 218 107 (1993) 116
18. Lecchi P., Olson M.T., and Brancia F.L. The Role of Esterification on Detection of Protonated and Deprotonated Peptide Ions in Matrix Assisted Laser Desorption/Ionization (MALDI) Mass Spectrometry (MS). J. Am. Soc. Mass Spectrom. 16 (2005) 1269-1274
19. Redeker V., Frankfurter, Parker S., Rossier J., and Detrich W. Post-translational Modification of Brain Tubulins from the Antarctic Fish Notothenia coriiceps: Reduced C-terminal Glutamylation Correlates with Efficient Microtubule Assembly at Low Temperature. Biochemistry 43 (2004) 12265-12274